The bioBakery help forum

Multiple comparisons in run_lefse.py

Hello,

I’m looking at the help menu for run_lefse.py and I see that there is an option for multiple comparisons, but I’m not understanding the distinctions.

Here is the option copied and pasted:

-s {0,1,2} set the multiple testing correction options. 0 no correction (more strict, default), 1 correction for independent comparisons, 2 correction for independent comparison

These are my questions:

  1. Could please explain how not performing multiple corrections is the most strict?

  2. What is the difference between 1 and 2; they look identical to me except 1 is plural (independent comparisons) while 2 is singular (independent comparison).

Thank you,
Samantha